Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 106 of 279
Found at i:33720753 original size:47 final size:46
Alignment explanation
Indices: 33720601--33720777 Score: 175
Period size: 47 Copynumber: 3.8 Consensus size: 46
33720591 TGTAACCCGC
* * *
33720601 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGA-AT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTTTC-ACAT
* * *
33720647 CTATAAGTGAACTCGGACTCAACTGAACGAGTTCGAATGCCTGGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG---GACT--TTCACAT
* *
33720697 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-TTTCACAT
*
33720741 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
33720778 TGTTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
43 2 0.02
44 6 0.06
45 2 0.02
46 34 0.32
47 54 0.50
48 2 0.02
49 3 0.03
50 2 0.02
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTTTCACAT
Found at i:33721233 original size:30 final size:30
Alignment explanation
Indices: 33721199--33721258 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
33721189 CCTTAATACG
33721199 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
33721229 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
33721259 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:33722957 original size:25 final size:25
Alignment explanation
Indices: 33722929--33722978 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
33722919 TATATAGGTG
*
33722929 TAGGCATAAGTTTAAGGTAGTTAAT
1 TAGGCATAAGTTTAAGGGAGTTAAT
* *
33722954 TAGGTATAAGTTTGAGGGAGTTAAT
1 TAGGCATAAGTTTAAGGGAGTTAAT
33722979 ATTATGTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (25 bp):
TAGGCATAAGTTTAAGGGAGTTAAT
Found at i:33724530 original size:3 final size:3
Alignment explanation
Indices: 33724522--33724566 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
33724512 GGATGTTTTA
*
33724522 ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
33724567 TAGTATGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:33725794 original size:14 final size:13
Alignment explanation
Indices: 33725729--33725794 Score: 71
Period size: 14 Copynumber: 4.9 Consensus size: 13
33725719 CAAATTTATA
33725729 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
*
33725742 TTTTT-TTTTCAT
1 TTTTTCTTTTCTT
*
33725754 TTTTTCTTCTTCTA
1 TTTTTCTT-TTCTT
*
33725768 CTTTTCTTCTTCTT
1 TTTTTCTT-TTCTT
33725782 GTTTTTCTTTTCT
1 -TTTTTCTTTTCT
33725795 CCCCTATAGC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
12 11 0.25
13 7 0.16
14 19 0.43
15 7 0.16
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:33727257 original size:20 final size:21
Alignment explanation
Indices: 33727214--33727259 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
33727204 ACTGTTTTGT
33727214 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
33727234 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
33727253 TATGGGC
1 TATGGGC
33727260 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:33728077 original size:16 final size:17
Alignment explanation
Indices: 33728045--33728077 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33728035 CATCAAGAAG
33728045 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
33728063 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
33728078 CTTTAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:33734179 original size:45 final size:45
Alignment explanation
Indices: 33734129--33734241 Score: 174
Period size: 45 Copynumber: 2.5 Consensus size: 45
33734119 GTAAGGGTAG
33734129 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
* * * *
33734174 CAGTAACGGTAACAGTAATAGTATTCGACACACAAAGTGTTGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
33734219 CAGTAACAGTAAC-GATAACAGTA
1 CAGTAACAGTAACAG-TAACAGTA
33734242 ACAGTTGTCG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.02
45 60 0.98
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
Found at i:33734253 original size:51 final size:51
Alignment explanation
Indices: 33734129--33734274 Score: 159
Period size: 45 Copynumber: 3.0 Consensus size: 51
33734119 GTAAGGGTAG
*
33734129 CAGTAAC-AGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAGTAA
1 CAGTAACGA-TAACAGTAACAGTATTCGACACACAAAGTGCTGAATCAGTAA
* *
33734180 C-G----G-TAACAGTAATAGTATTCGACACACAAAGTGTTGAATCAGTAA
1 CAGTAACGATAACAGTAACAGTATTCGACACACAAAGTGCTGAATCAGTAA
*
33734225 CAGTAACGATAACAGTAACAGT-TGTCGACACA-TAAGTGCCTG-ATCAGTAA
1 CAGTAACGATAACAGTAACAGTAT-TCGACACACAAAGTG-CTGAATCAGTAA
33734275 GCCGGCAAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
45 40 0.50
46 1 0.01
50 16 0.20
51 23 0.29
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.22
Consensus pattern (51 bp):
CAGTAACGATAACAGTAACAGTATTCGACACACAAAGTGCTGAATCAGTAA
Found at i:33734491 original size:40 final size:40
Alignment explanation
Indices: 33734447--33734530 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
33734437 AATTCATTAC
* * *
33734447 TTCAGTAATTTCACAGTTCAATGCAAT-ATACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAATAAT-CAAAACAATA
* *
33734487 TTCAGTAACTTCACAATTCAATTCAGTAATCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAATAATCAAAACAATA
33734527 TTCA
1 TTCA
33734531 ATATTCCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 36 0.95
41 2 0.05
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAATAATCAAAACAATA
Found at i:33736184 original size:18 final size:18
Alignment explanation
Indices: 33736161--33736197 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
33736151 ATAAGTCTAC
33736161 AGGGGTAAATCCACCTAG
1 AGGGGTAAATCCACCTAG
33736179 AGGGGTAAATCCACCTAG
1 AGGGGTAAATCCACCTAG
33736197 A
1 A
33736198 CTTTCCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.16
Consensus pattern (18 bp):
AGGGGTAAATCCACCTAG
Found at i:33737484 original size:15 final size:14
Alignment explanation
Indices: 33737463--33737496 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
33737453 TTCCGTCGTT
33737463 TCTTTTCTTTTTGC
1 TCTTTTCTTTTTGC
33737477 TNCTTTTCTTTTTGC
1 T-CTTTTCTTTTTGC
33737492 T-TTTT
1 TCTTTT
33737497 GCTTACCTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 1 0.05
15 14 0.74
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.74
Consensus pattern (14 bp):
TCTTTTCTTTTTGC
Found at i:33742610 original size:218 final size:218
Alignment explanation
Indices: 33742230--33742650 Score: 707
Period size: 218 Copynumber: 1.9 Consensus size: 218
33742220 TTTTTGTCAG
*
33742230 AAAATAATAAATCCAGTCAATATCCACCAAAAAGTCTTACATAGTTGCCCAAGAGCTATTTGATA
1 AAAATAATAAATCCAGTCAATATCCACCAAAAAGTCTTACATAGTTGCCCAAGAGCTATTCGATA
* * * *
33742295 AAAAATTAACTCCTCTTGTGCAACAAGATGCAATGAAAGGGTAAAGCCTTCCTCTAAGGAATGCA
66 AAAAATTAACACCTATTGTGCAACAAGATGCAATGAAAAGGTAAAGCCTTCCTCTAAGGAATACA
* *
33742360 AAGAAATGAGAAAACTAGGAGGATCATTGTAAGTCTTGTTCCCACTATACTTCCTTTCAACCTAC
131 AAGAAAGGAGAAAACTAGGAGGATCATTGTAAGTCTTATTCCCACTATACTTCCTTTCAACCTAC
*
33742425 GAAATGTCCTACTTTCTTATCAA
196 AAAATGTCCTACTTTCTTATCAA
** *
33742448 AAAATAATAAATCCAGTCAATATCCACCAGGAAGTCTTACATAGTTGCCCAGGAGCTATTCGATA
1 AAAATAATAAATCCAGTCAATATCCACCAAAAAGTCTTACATAGTTGCCCAAGAGCTATTCGATA
33742513 AAAAATTAACACCTATTGTGCAACAAGATGCAATGAAAAGGTAAAGCCTTCCTCTAAGGAATACA
66 AAAAATTAACACCTATTGTGCAACAAGATGCAATGAAAAGGTAAAGCCTTCCTCTAAGGAATACA
* * * *
33742578 AATAAAGGAGAAAACTAGGAGGATCCTTGTAAGTCTTATTCCCACTATACTTTCTTTCAATCTAC
131 AAGAAAGGAGAAAACTAGGAGGATCATTGTAAGTCTTATTCCCACTATACTTCCTTTCAACCTAC
33742643 AAAATGTC
196 AAAATGTC
33742651 GTATTTTTCC
Statistics
Matches: 188, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
218 188 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.27
Consensus pattern (218 bp):
AAAATAATAAATCCAGTCAATATCCACCAAAAAGTCTTACATAGTTGCCCAAGAGCTATTCGATA
AAAAATTAACACCTATTGTGCAACAAGATGCAATGAAAAGGTAAAGCCTTCCTCTAAGGAATACA
AAGAAAGGAGAAAACTAGGAGGATCATTGTAAGTCTTATTCCCACTATACTTCCTTTCAACCTAC
AAAATGTCCTACTTTCTTATCAA
Found at i:33750171 original size:374 final size:374
Alignment explanation
Indices: 33749482--33750226 Score: 1490
Period size: 374 Copynumber: 2.0 Consensus size: 374
33749472 GGGTTTGGTG
33749482 GTAAATTTTAGGTTTATTAGGGGCTGTATGAGGGCCTAGAATATTTGGATAGATTATTGATTTGA
1 GTAAATTTTAGGTTTATTAGGGGCTGTATGAGGGCCTAGAATATTTGGATAGATTATTGATTTGA
33749547 GAAAATTAGTTAATTTGATAGATTAATTAATTAAGGGATTAAATTGAAAAAGTTAAAAAGTTTGG
66 GAAAATTAGTTAATTTGATAGATTAATTAATTAAGGGATTAAATTGAAAAAGTTAAAAAGTTTGG
33749612 GGTAATTGCATAAATTTGAAAAATAAAATGGTATTAATTGTAAAGTGGATTGGAAATGAAATATA
131 GGTAATTGCATAAATTTGAAAAATAAAATGGTATTAATTGTAAAGTGGATTGGAAATGAAATATA
33749677 ATCTAATAAATGAGTAATTTTATATTTTAGATCAAGATCTCGTAGATACTCGTGGAGAAGGAAAA
196 ATCTAATAAATGAGTAATTTTATATTTTAGATCAAGATCTCGTAGATACTCGTGGAGAAGGAAAA
33749742 TAGCAAAATAGTTCTTGAACTTCTGCAATTACTACAATTCAGTCCAGGTAAGTTTTTACGGTTAA
261 TAGCAAAATAGTTCTTGAACTTCTGCAATTACTACAATTCAGTCCAGGTAAGTTTTTACGGTTAA
33749807 AATTTAACATTTGTATAAATTGATGATTGGTATTATGCATATATTCGTA
326 AATTTAACATTTGTATAAATTGATGATTGGTATTATGCATATATTCGTA
33749856 GTAAATTTTAGGTTTATTAGGGGCTGTATGAGGGCCTAGAATATTTGGATAGATTATTGATTTGA
1 GTAAATTTTAGGTTTATTAGGGGCTGTATGAGGGCCTAGAATATTTGGATAGATTATTGATTTGA
33749921 GAAAATTAGTTAATTTGATAGATTAATTAATTAAGGGATTAAATTGAAAAAGTTAAAAAGTTTGG
66 GAAAATTAGTTAATTTGATAGATTAATTAATTAAGGGATTAAATTGAAAAAGTTAAAAAGTTTGG
33749986 GGTAATTGCATAAATTTGAAAAATAAAATGGTATTAATTGTAAAGTGGATTGGAAATGAAATATA
131 GGTAATTGCATAAATTTGAAAAATAAAATGGTATTAATTGTAAAGTGGATTGGAAATGAAATATA
33750051 ATCTAATAAATGAGTAATTTTATATTTTAGATCAAGATCTCGTAGATACTCGTGGAGAAGGAAAA
196 ATCTAATAAATGAGTAATTTTATATTTTAGATCAAGATCTCGTAGATACTCGTGGAGAAGGAAAA
33750116 TAGCAAAATAGTTCTTGAACTTCTGCAATTACTACAATTCAGTCCAGGTAAGTTTTTACGGTTAA
261 TAGCAAAATAGTTCTTGAACTTCTGCAATTACTACAATTCAGTCCAGGTAAGTTTTTACGGTTAA
33750181 AATTTAACATTTGTATAAATTGATGATTGGTATTATGCATATATTC
326 AATTTAACATTTGTATAAATTGATGATTGGTATTATGCATATATTC
33750227 TATTGTTGGA
Statistics
Matches: 371, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
374 371 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.36
Consensus pattern (374 bp):
GTAAATTTTAGGTTTATTAGGGGCTGTATGAGGGCCTAGAATATTTGGATAGATTATTGATTTGA
GAAAATTAGTTAATTTGATAGATTAATTAATTAAGGGATTAAATTGAAAAAGTTAAAAAGTTTGG
GGTAATTGCATAAATTTGAAAAATAAAATGGTATTAATTGTAAAGTGGATTGGAAATGAAATATA
ATCTAATAAATGAGTAATTTTATATTTTAGATCAAGATCTCGTAGATACTCGTGGAGAAGGAAAA
TAGCAAAATAGTTCTTGAACTTCTGCAATTACTACAATTCAGTCCAGGTAAGTTTTTACGGTTAA
AATTTAACATTTGTATAAATTGATGATTGGTATTATGCATATATTCGTA
Found at i:33751735 original size:27 final size:26
Alignment explanation
Indices: 33751700--33751811 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
33751690 AGCATGGCTG
* *
33751700 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
33751726 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
33751754 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
33751781 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
33751808 CCAG
1 CCAG
33751812 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:33751792 original size:54 final size:54
Alignment explanation
Indices: 33751700--33751811 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
33751690 AGCATGGCTG
* *
33751700 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
33751754 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
33751808 CCAG
1 CCAG
33751812 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:33753292 original size:24 final size:24
Alignment explanation
Indices: 33753265--33753329 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
33753255 CACCCTAATT
33753265 AGCTCCTAAATCCTCTCCCTGATC
1 AGCTCCTAAATCCTCTCCCTGATC
*
33753289 AGCTCCTAAATCCTCTCCCTTATC
1 AGCTCCTAAATCCTCTCCCTGATC
*
33753313 AGCTCCTAAATCTTCTC
1 AGCTCCTAAATCCTCTC
33753330 TAGACAGACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.22, C:0.40, G:0.06, T:0.32
Consensus pattern (24 bp):
AGCTCCTAAATCCTCTCCCTGATC
Found at i:33759351 original size:27 final size:27
Alignment explanation
Indices: 33759318--33759381 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
33759308 CATGGCTGCT
**
33759318 AGAACAGATAAT-GTGACAGAGTCACC
1 AGAACAGATAATCGTGACAGAACCACC
*
33759344 AGATACAGATAATCGTGGCAGAACCACC
1 AGA-ACAGATAATCGTGACAGAACCACC
33759372 AGAACAGATA
1 AGAACAGATA
33759382 TATATGCTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.09
27 16 0.48
28 14 0.42
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (27 bp):
AGAACAGATAATCGTGACAGAACCACC
Found at i:33759407 original size:54 final size:54
Alignment explanation
Indices: 33759318--33759427 Score: 134
Period size: 54 Copynumber: 2.0 Consensus size: 54
33759308 CATGGCTGCT
* * *
33759318 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCACC
1 AGAACAGATAATATGACAGAGCCACCAAATACAGATAATCGTGGCAGAACCACC
* * *
33759372 AGAACAGATATATATG-CTAGAGCCACCAAAT-CAGATAATTGTGGCATAGCCACC
1 AGAACAGATA-ATATGAC-AGAGCCACCAAATACAGATAATCGTGGCAGAACCACC
33759426 AG
1 AG
33759428 GACGCTTCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
54 33 0.69
55 15 0.31
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (54 bp):
AGAACAGATAATATGACAGAGCCACCAAATACAGATAATCGTGGCAGAACCACC
Found at i:33760891 original size:24 final size:24
Alignment explanation
Indices: 33760859--33760908 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
33760849 ACATAGTTCA
33760859 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* * *
33760883 CCCTTATCAGCTCTTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
33760907 CC
1 CC
33760909 AGACAGACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.40, G:0.04, T:0.34
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:33762504 original size:21 final size:21
Alignment explanation
Indices: 33762475--33762515 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33762465 TTGTAATTTA
*
33762475 TATTTTTTTTTAAAACTATAT
1 TATTATTTTTTAAAACTATAT
*
33762496 TATTATTTTTTAAAATTATA
1 TATTATTTTTTAAAACTATA
33762516 GAAATACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTATTTTTTAAAACTATAT
Found at i:33763442 original size:16 final size:18
Alignment explanation
Indices: 33763406--33763442 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33763396 TTAGTTTTTG
*
33763406 TATTTTGTTATAGTTATT
1 TATTTTGTTATAGTAATT
33763424 TATTTTGTTA-A-TAATT
1 TATTTTGTTATAGTAATT
33763440 TAT
1 TAT
33763443 GGGATTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TATTTTGTTATAGTAATT
Found at i:33763609 original size:16 final size:18
Alignment explanation
Indices: 33763573--33763609 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33763563 TTAGTTTTTG
*
33763573 TATTTTGTTATAGTTATT
1 TATTTTGTTATAGTAATT
33763591 TATTTTGTTA-A-TAATT
1 TATTTTGTTATAGTAATT
33763607 TAT
1 TAT
33763610 GGGATTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TATTTTGTTATAGTAATT
Found at i:33763616 original size:167 final size:169
Alignment explanation
Indices: 33763339--33763739 Score: 720
Period size: 167 Copynumber: 2.4 Consensus size: 169
33763329 TGTAAATTTT
*
33763339 TTTTAAAAAAATAATTGTATAGTTATTTTGTTAGT-A-GTATGATTAGGTTATAAATTGTTAGTT
1 TTTTAAAAAAATAATT-TATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTT
33763402 TTTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTTATGGGATTAAGTTACAAATTGTTAGT
65 TTTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTTATGGGATTAAGTTACAAATTGTTAGT
*
33763467 GTTTAGTGGTTTAGGGTATTGTGGTTTTTTAGTAATGTAA
130 GTTTAGTGGTTTAGGGTATTGTGATTTTTTAGTAATGTAA
33763507 -TTTAAAAAAA-AATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTTT
1 TTTTAAAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTTT
33763570 TTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTTATGGGATTAAGTTACAAATTGTTAGTG
66 TTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTTATGGGATTAAGTTACAAATTGTTAGTG
33763635 TTTAGTGGTTTAGGGTATTGTGATTTTTTAGTAATGTAA
131 TTTAGTGGTTTAGGGTATTGTGATTTTTTAGTAATGTAA
33763674 TTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAAAATTGTTAG
1 TTTTAAAAAAATAA-TTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTAT--AAATTGTTAG
33763739 T
63 T
33763740 GTTCTGTGGT
Statistics
Matches: 224, Mismatches: 2, Indels: 10
0.95 0.01 0.04
Matches are distributed among these distances:
165 18 0.08
166 5 0.02
167 140 0.62
168 10 0.04
169 2 0.01
170 38 0.17
172 11 0.05
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (169 bp):
TTTTAAAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTTT
TTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTTATGGGATTAAGTTACAAATTGTTAGTG
TTTAGTGGTTTAGGGTATTGTGATTTTTTAGTAATGTAA
Found at i:33763713 original size:106 final size:102
Alignment explanation
Indices: 33763590--33763993 Score: 410
Period size: 113 Copynumber: 3.8 Consensus size: 102
33763580 TTATAGTTAT
*
33763590 TTATTTTGTTAATAATTTATGGGATTAAGTTACAAATTGTTAGTGTTTAGTGGTTTAGGGTATTG
1 TTATTTTGTTAGTAATTTAT--GATTAAGTTACAAATTGTTAGTGTTT-GTGGTTTAGGGTATTG
33763655 TGATTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATAG
63 TGATTTTTTAGTAATGT-ATTTTAAAAAAATAATTTTATAG
* *
33763696 TTATTTTGTTAGTAATTTATGATTAGGTTATAAAAATTGTTAGTGTTCTGTGGTTTAGTATATTA
1 TTATTTTGTTAGTAATTTATGATTAAG-T-TACAAATTGTTAGTGTT-TGTGGTTTAG-------
* *
33763761 GTGTATTGTGATTTTTTAGTAATATGTTTTAAAAAAATAATTTTATAG
56 G-GTATTGTGATTTTTTAGTAATGTATTTTAAAAAAATAATTTTATAG
* * * * * *
33763809 CTATTTTATTAGTAATTTATGATTAGGTTACATAAATTGCTAGTGTTTAGTGGTTTAGTGTATTA
1 TTATTTTGTTAGTAATTTATGATTAAGTTAC--AAATTGTTAGTGTTT-GTGGTTTAGGGTATTG
*
33763874 TGATTTTTTAGTAATGTATTTAAAAAATAATAATTTT-TAG
63 TGATTTTTTAGTAATGTATTTTAAAAA-AATAATTTTATAG
* * * *
33763914 TTATTTTGTATTAGTAATTTATGATT-A--T--AAATTGTTAGTGTTTCTAGTTTAGTGTTTTGT
1 TTATTTTG--TTAGTAATTTATGATTAAGTTACAAATTGTTAGTGTTTGTGGTTTAGGGTATTGT
33763974 GATTTTTT--TAATGTAATTTT
64 GATTTTTTAGTAATGT-ATTTT
33763994 TATATAATGT
Statistics
Matches: 257, Mismatches: 23, Indels: 44
0.79 0.07 0.14
Matches are distributed among these distances:
97 6 0.02
98 4 0.02
99 21 0.08
100 14 0.05
104 7 0.03
105 39 0.15
106 53 0.21
107 17 0.07
111 2 0.01
112 2 0.01
113 70 0.27
114 22 0.09
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.52
Consensus pattern (102 bp):
TTATTTTGTTAGTAATTTATGATTAAGTTACAAATTGTTAGTGTTTGTGGTTTAGGGTATTGTGA
TTTTTTAGTAATGTATTTTAAAAAAATAATTTTATAG
Found at i:33764009 original size:15 final size:16
Alignment explanation
Indices: 33763982--33764013 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
33763972 GTGATTTTTT
33763982 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
33763998 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
33764013 T
1 T
33764014 TATTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:33770896 original size:16 final size:16
Alignment explanation
Indices: 33770827--33770894 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
33770817 TTTGGTTCGC
33770827 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
33770843 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
33770859 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
33770875 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
33770891 TGTA
1 TGTA
33770895 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:33770929 original size:45 final size:44
Alignment explanation
Indices: 33770875--33770969 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
33770865 GGATTAGAGG
* *
33770875 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
33770920 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
33770964 TGTAAT
1 TGTAAT
33770970 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:33771139 original size:25 final size:25
Alignment explanation
Indices: 33771107--33771161 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
33771097 TAATTTAATC
*
33771107 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
33771131 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
33771156 ATATAT
1 ATATAT
33771162 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:33771343 original size:47 final size:46
Alignment explanation
Indices: 33771292--33771452 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
33771282 GATTTAATAA
33771292 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
33771339 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
33771380 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
33771427 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
33771453 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:33772604 original size:61 final size:58
Alignment explanation
Indices: 33772534--33772650 Score: 198
Period size: 61 Copynumber: 2.0 Consensus size: 58
33772524 GTATACACTC
33772534 CATTACACAACCTATTTATACTAATAATCAGATATACTAAGAAGGAAAGTCAAAGATTACA
1 CATTACACAACCTATTTATACTAATAATCAGATATAC--A-AAGGAAAGTCAAAGATTACA
*
33772595 CATTACACAACCTATTTATGCTAATAATCAGATATACAAAGGAAAGTCAAAGATTA
1 CATTACACAACCTATTTATACTAATAATCAGATATACAAAGGAAAGTCAAAGATTA
33772651 TAAATCCTAA
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
58 18 0.33
59 1 0.02
61 36 0.65
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.26
Consensus pattern (58 bp):
CATTACACAACCTATTTATACTAATAATCAGATATACAAAGGAAAGTCAAAGATTACA
Found at i:33775691 original size:21 final size:20
Alignment explanation
Indices: 33775665--33775703 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
33775655 AAGCTTATAT
33775665 AAAAAACAAAAATAATTGAGA
1 AAAAAACAAAAAT-ATTGAGA
*
33775686 AAAAAACGAAAATATTGA
1 AAAAAACAAAAATATTGA
33775704 TTTTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (20 bp):
AAAAAACAAAAATATTGAGA
Found at i:33788152 original size:30 final size:30
Alignment explanation
Indices: 33788114--33788177 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
33788104 AACTTATTTT
33788114 ATTT-TTAATTTTGTTATTATTTTAAAGGC
1 ATTTGTTAATTTTGTTATTATTTTAAAGGC
* *
33788143 ATTTGTTAATTTTGTTATTATTTTAGAGGT
1 ATTTGTTAATTTTGTTATTATTTTAAAGGC
33788173 ATTTG
1 ATTTG
33788178 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (30 bp):
ATTTGTTAATTTTGTTATTATTTTAAAGGC
Found at i:33789611 original size:18 final size:17
Alignment explanation
Indices: 33789584--33789617 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33789574 AATTAAATTA
33789584 AATATAATTTTTTAAAAT
1 AATATAA-TTTTTAAAAT
*
33789602 AATATTATTTTTAAAA
1 AATATAATTTTTAAAA
33789618 AAAGTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATAATTTTTAAAAT
Found at i:33789618 original size:18 final size:18
Alignment explanation
Indices: 33789584--33789618 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33789574 AATTAAATTA
*
33789584 AATATAATTTTTTAAAAT
1 AATATAATTTTTAAAAAT
*
33789602 AATATTATTTTTAAAAA
1 AATATAATTTTTAAAAA
33789619 AAGTTAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATAATTTTTAAAAAT
Found at i:33790062 original size:5 final size:5
Alignment explanation
Indices: 33790043--33790076 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
33790033 GTAAATTAGT
33790043 AAATA AAAGTA AAATA AAATA AAATA AAATA AAA
1 AAATA AAA-TA AAATA AAATA AAATA AAATA AAA
33790077 GGTTGTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:33791761 original size:23 final size:23
Alignment explanation
Indices: 33791735--33791778 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
33791725 GCATGCTATC
**
33791735 CCATCCAACCCTGCACACCATCT
1 CCATCCAACCCAACACACCATCT
33791758 CCATCCAACCCAACACACCAT
1 CCATCCAACCCAACACACCAT
33791779 GTGGGGATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.52, G:0.02, T:0.14
Consensus pattern (23 bp):
CCATCCAACCCAACACACCATCT
Found at i:33791827 original size:40 final size:40
Alignment explanation
Indices: 33791762--33791856 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
33791752 CCATCTCCAT
* * * *
33791762 CCAACCCAACACACC-A-TGTGGGGATAGA-ATCGACTCAC
1 CCAACCCTACACACCAAGTATGGGGATA-ACATCAACCCAC
* *
33791800 CCAGCCCTACACACCAAGTATGGGGATAACATCAACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAACATCAACCCAC
33791840 CCAACCCTACACACCAA
1 CCAACCCTACACACCAA
33791857 ATGGTACCGT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 13 0.28
39 2 0.04
40 32 0.68
ACGTcount: A:0.36, C:0.38, G:0.14, T:0.13
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAACATCAACCCAC
Found at i:33792245 original size:24 final size:23
Alignment explanation
Indices: 33792171--33792250 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 23
33792161 TAAGCCCTCC
**
33792171 AAAAAAAAACCTAACCAAAAAAAA
1 AAAAAAAAACCTAACC-ACCAAAA
*
33792195 AAAAAAAAACCTAACCCCCCCCCAAAA
1 AAAAAAAAACCTAA----CCACCAAAA
* *
33792222 AAAGAAAAACCTAACCTCCAAAA
1 AAAAAAAAACCTAACCACCAAAA
33792245 AAAAAA
1 AAAAAA
33792251 CCAAGAAACC
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
23 13 0.28
24 14 0.30
27 17 0.37
28 2 0.04
ACGTcount: A:0.68, C:0.26, G:0.01, T:0.05
Consensus pattern (23 bp):
AAAAAAAAACCTAACCACCAAAA
Found at i:33793127 original size:16 final size:15
Alignment explanation
Indices: 33793103--33793137 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
33793093 TAATTATTAT
33793103 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
33793119 TATTTTAATATTTTA
1 TATTCTAATATTTTA
33793134 TATT
1 TATT
33793138 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:33802021 original size:40 final size:40
Alignment explanation
Indices: 33801962--33802070 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
33801952 TATTTTAATC
* * *
33801962 TCGCACACTAAGTGTCATACATAGTCGAAGCTATCTCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAACTATCTCGAA
* *
33802002 TTGCACACTAAATGCCATACATAGCCGAAACTATCTCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAACTATCTCGAA
33802042 TCGCACACTAAGTGCCATACATAGCCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAA
33802071 TTGTCGTCAA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.22
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAACTATCTCGAA
Found at i:33803358 original size:36 final size:36
Alignment explanation
Indices: 33803307--33803383 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
33803297 ACTTTGGAGT
33803307 ATTT-ACTAGTATCAGGTATAAAGCCTTTACGCATC
1 ATTTCACTAGTATCAGGTATAAAGCCTTTACGCATC
33803342 ATTTCACTAGTATCAGGTATAAAGCCTTTACGCATC
1 ATTTCACTAGTATCAGGTATAAAGCCTTTACGCATC
33803378 ATTTCA
1 ATTTCA
33803384 TGAATAATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 4 0.10
36 37 0.90
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (36 bp):
ATTTCACTAGTATCAGGTATAAAGCCTTTACGCATC
Found at i:33804210 original size:186 final size:189
Alignment explanation
Indices: 33803790--33804215 Score: 716
Period size: 189 Copynumber: 2.3 Consensus size: 189
33803780 ACATCAATAG
* *
33803790 TAATTTATTTTTAACACGATAAGTTAAAATTTTGATCAACACAAGTTGAAATGAGTTTCTTAAAC
1 TAATTTATTTTTAACATGATAAGTTAAAATTTTGATCAACACAAGTTGAAATGAATTTCTTAAAC
* * *
33803855 ACTAATATTTTCATTAAGTAAACAATGTAATACTTTATATTAATGTTATTTTTATAAAATTTCAA
66 ACTAATATTTTCATTAAGTAAACAATCTAATACTTTAAATTAACGTTATTTTTATAAAATTTCAA
*
33803920 AACTTAGAGTTGTTTTGGCATTATTGTTGTTATATATAATGTTTATTTTTTATAAATAA
131 AACTTAGAGTTGTTTTGGCATTATTGTTGTTATATATAATGTTTATTTTTTATAAAGAA
* * *
33803979 TAATTTATTTTTAATATGATAAGTTAAAATTTCGACCAACACAAGTTGAAATGAATTTCTTAAAC
1 TAATTTATTTTTAACATGATAAGTTAAAATTTTGATCAACACAAGTTGAAATGAATTTCTTAAAC
*
33804044 ACTAATATTTTCGTTAAGTAAACAATCTAATA-TTTAAATTAACGTTATTTTTATAAAATTTC-A
66 ACTAATATTTTCATTAAGTAAACAATCTAATACTTTAAATTAACGTTATTTTTATAAAATTTCAA
*
33804107 AACATTAGAGTTGTTTTGGCATTATT-TTTTTATATATAATGTTTA-TTTTTATAAAGAA
131 AAC-TTAGAGTTGTTTTGGCATTATTGTTGTTATATATAATGTTTATTTTTTATAAAGAA
33804165 TAATTTATTTTTAACATGATAAGTTAAAATTTTGATCAACACAAGTTGAAA
1 TAATTTATTTTTAACATGATAAGTTAAAATTTTGATCAACACAAGTTGAAA
33804216 CCTAATATTT
Statistics
Matches: 222, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
186 60 0.27
187 22 0.10
188 50 0.23
189 90 0.41
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (189 bp):
TAATTTATTTTTAACATGATAAGTTAAAATTTTGATCAACACAAGTTGAAATGAATTTCTTAAAC
ACTAATATTTTCATTAAGTAAACAATCTAATACTTTAAATTAACGTTATTTTTATAAAATTTCAA
AACTTAGAGTTGTTTTGGCATTATTGTTGTTATATATAATGTTTATTTTTTATAAAGAA
Found at i:33813480 original size:26 final size:24
Alignment explanation
Indices: 33813442--33813489 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
33813432 TTTGTTTTAA
*
33813442 TATTTGTTTTTATGTTTTTAAATG
1 TATTTGTTTTTATATTTTTAAATG
33813466 TATTTGATTTATTATATTTTTAAA
1 TATTTG-TTT-TTATATTTTTAAA
33813490 ACATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (24 bp):
TATTTGTTTTTATATTTTTAAATG
Found at i:33819024 original size:24 final size:24
Alignment explanation
Indices: 33818991--33819064 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
33818981 AAGTCTGTCT
*
33818991 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
33819015 GGAGAGGATTTAGGAGCTGATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
33819039 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
33819063 GG
1 GG
33819065 TGAACTGTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:33820534 original size:27 final size:26
Alignment explanation
Indices: 33820494--33820605 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
33820484 AGGAAGCGTC
*
33820494 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
33820521 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
33820547 CCTGGTGGTTCTGCCACGATTATCTGTAT
1 -CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
33820576 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
33820602 CTGG
1 CTGG
33820606 CTGCCATGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
26 8 0.11
27 50 0.68
28 15 0.20
29 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:33820598 original size:54 final size:54
Alignment explanation
Indices: 33820491--33820605 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
33820481 TGAAGGAAGC
*
33820491 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
33820545 GTCCTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCT
*
33820599 GTTCTGG
1 GTCCTGG
33820606 CTGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:33821905 original size:34 final size:35
Alignment explanation
Indices: 33821836--33821907 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
33821826 TTCTTTCCTT
* *
33821836 TTTCTTTCTTTTTCCATTCTGTTTCATTTTCTTTC
1 TTTCTTTCTTTTTACATTCTGTTTCATTTTATTTC
**
33821871 TTTCTTTCTTTTCTAC-TTCT-TTTTGTTTTATTTC
1 TTTCTTTCTTTT-TACATTCTGTTTCATTTTATTTC
33821905 TTT
1 TTT
33821908 GTTTTATAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 14 0.44
35 16 0.50
36 2 0.06
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.72
Consensus pattern (35 bp):
TTTCTTTCTTTTTACATTCTGTTTCATTTTATTTC
Found at i:33823397 original size:32 final size:32
Alignment explanation
Indices: 33823361--33823425 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
33823351 TGTATGCATT
*
33823361 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAATTAATGGATGATGGGCA
33823393 TTAGCATTTTAATAATTAATGGATGATGGGCA
1 TTAGCATTTTAATAATTAATGGATGATGGGCA
33823425 T
1 T
33823426 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAATTAATGGATGATGGGCA
Found at i:33828099 original size:20 final size:20
Alignment explanation
Indices: 33828076--33828118 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
33828066 CGAATTGATA
33828076 ACATAGGCTAAAAAAGCTTT
1 ACATAGGCTAAAAAAGCTTT
33828096 ACATAGGCTAAAAAAGCTTT
1 ACATAGGCTAAAAAAGCTTT
33828116 ACA
1 ACA
33828119 ACCTTGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (20 bp):
ACATAGGCTAAAAAAGCTTT
Found at i:33831954 original size:30 final size:31
Alignment explanation
Indices: 33831905--33831966 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
33831895 TCTTTTTCCC
* * *
33831905 TTCTGTTTTGTTTTCTTTCTTTCTTTTCTAT
1 TTCTGTTTTCTTTTATTTCTTTCTTTTATAT
*
33831936 TTCT-TTTTCTTTTATTTCTTTGTTTTATAT
1 TTCTGTTTTCTTTTATTTCTTTCTTTTATAT
33831966 T
1 T
33831967 AAAATATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.06, C:0.13, G:0.05, T:0.76
Consensus pattern (31 bp):
TTCTGTTTTCTTTTATTTCTTTCTTTTATAT
Found at i:33832051 original size:35 final size:37
Alignment explanation
Indices: 33831976--33832059 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 37
33831966 TAAAATATAA
* * *
33831976 TATATAATATATATACTTAAATATTAAGTTTTAATAT
1 TATATAATATATATACATAAATATTAACTTTAAATAT
* * *
33832013 TATATAATAT-TATA-ATATATATTTACTTTAAATTT
1 TATATAATATATATACATAAATATTAACTTTAAATAT
33832048 TATAATAATATA
1 TAT-ATAATATA
33832060 CTTATGGGGC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
35 18 0.46
36 11 0.28
37 10 0.26
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.50
Consensus pattern (37 bp):
TATATAATATATATACATAAATATTAACTTTAAATAT
Found at i:33832290 original size:26 final size:26
Alignment explanation
Indices: 33832261--33832312 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
33832251 TATTTACGAG
*
33832261 TCTAATTTATAAAAATGGAGCCTCAA
1 TCTAATTTATAAAAACGGAGCCTCAA
33832287 TCTAATTTATAAAAACGGAGCCTCAA
1 TCTAATTTATAAAAACGGAGCCTCAA
33832313 AAATACATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (26 bp):
TCTAATTTATAAAAACGGAGCCTCAA
Found at i:33833220 original size:10 final size:11
Alignment explanation
Indices: 33833164--33833227 Score: 55
Period size: 10 Copynumber: 6.0 Consensus size: 11
33833154 TAAAAAAATA
33833164 TTTAATATATATT
1 TTTAA-ATAT-TT
*
33833177 TTTAAATAATT
1 TTTAAATATTT
33833188 TTT-AAT-TTT
1 TTTAAATATTT
**
33833197 TAGAAATATTT
1 TTTAAATATTT
33833208 TTTAAAT-TTT
1 TTTAAATATTT
33833218 TTTAAA-ATTT
1 TTTAAATATTT
33833228 AAATTTAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
9 3 0.07
10 18 0.43
11 13 0.31
12 3 0.07
13 5 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTAAATATTT
Found at i:33833227 original size:20 final size:20
Alignment explanation
Indices: 33833175--33833227 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
33833165 TTAATATATA
*
33833175 TTTTTAAATAATTTTTAATT
1 TTTTTAAATATTTTTTAATT
**
33833195 TTTAGAAATATTTTTTAAATT
1 TTTTTAAATATTTTTT-AATT
33833216 TTTTTAAA-ATTT
1 TTTTTAAATATTT
33833228 AAATTTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTAAATATTTTTTAATT
Found at i:33837225 original size:15 final size:15
Alignment explanation
Indices: 33837202--33837237 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
33837192 CCACAAAAGA
*
33837202 ATATTATATCTTTTC
1 ATATCATATCTTTTC
33837217 ATATCATATCTTTTC
1 ATATCATATCTTTTC
33837232 ATATCA
1 ATATCA
33837238 ATGTCAGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATCATATCTTTTC
Found at i:33839072 original size:3 final size:3
Alignment explanation
Indices: 33839066--33839099 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
33839056 ATAATAATAA
*
33839066 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
33839100 TAAAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:33839509 original size:13 final size:13
Alignment explanation
Indices: 33839491--33839571 Score: 85
Period size: 13 Copynumber: 6.0 Consensus size: 13
33839481 GGTGATGGAG
*
33839491 TTAGTGAGGTGGT
1 TTAGTGGGGTGGT
33839504 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
33839517 TTAGT--GGTCGGT
1 TTAGTGGGGT-GGT
*
33839529 TTAGTGGGGTGTTGGAG
1 TTAGT-GGG-G-TGG-T
33839546 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
33839559 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
33839572 ATTTGGGTTG
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
11 3 0.05
12 8 0.14
13 30 0.52
14 3 0.05
15 2 0.03
16 6 0.10
17 6 0.10
ACGTcount: A:0.10, C:0.01, G:0.51, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGGT
Found at i:33839512 original size:30 final size:28
Alignment explanation
Indices: 33839476--33839569 Score: 106
Period size: 30 Copynumber: 3.3 Consensus size: 28
33839466 TTTACAATCA
33839476 AGTGGGGTGATGGAGTTAGTGAGGTGGTTT
1 AGTGGGGTG-TGGAGTTAGTG-GGTGGTTT
*
33839506 AGT-GGG-GTGG-TTTAGT-GGTCGGTTT
1 AGTGGGGTGTGGAGTTAGTGGGT-GGTTT
33839531 AGTGGGGTGTTGGAGTTAGTGGGGTGGTTT
1 AGTGGGGTG-TGGAGTTAGT-GGGTGGTTT
33839561 AGTGGGGTG
1 AGTGGGGTG
33839570 GTATTTGGGT
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
24 3 0.05
25 8 0.15
26 8 0.15
27 4 0.07
28 4 0.07
29 8 0.15
30 17 0.31
31 3 0.05
ACGTcount: A:0.12, C:0.01, G:0.52, T:0.35
Consensus pattern (28 bp):
AGTGGGGTGTGGAGTTAGTGGGTGGTTT
Found at i:33839884 original size:44 final size:43
Alignment explanation
Indices: 33839836--33840411 Score: 160
Period size: 44 Copynumber: 13.1 Consensus size: 43
33839826 ATGATTTGTA
33839836 ATCTTCAGCCTGTTTCCCTACTGCTTAGGAGGATAAGACTCACC
1 ATCTTCAGCCTGTTTCCCTACTGCTTAGG-GGATAAGACTCACC
* * * *
33839880 ATCTTC-GATCTG-CTCCACTGCTGCTTAGGGAGATAAGATCTGTA--
1 ATCTTCAG-CCTGTTTCC-CTACTGCTTAGGG-GATAAGA-CT-CACC
* ** * *
33839924 ATTTTTGGCATGTTTCCCTACTGCTTAGGGGGATAAGGCTCACC
1 ATCTTCAGCCTGTTTCCCTACTGCTTA-GGGGATAAGACTCACC
* * ** * **
33839968 GTCTTCGATCC--ACTCCACTATTGCTTAGGGAGATAAGA-TCTATA
1 ATCTTC-AGCCTGTTTCC-CTACTGCTTAGGG-GATAAGACTC-ACC
* * * *
33840012 ATTTTTAGCCTGTTTCCCTACTGTTTAGGGGAATAAGGCTCACC
1 ATCTTCAGCCTGTTTCCCTACTGCTTAGGGG-ATAAGACTCACC
* ** * * *
33840056 GTCTTCAATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGTA--
1 ATCTTCAGCCTGTTTCCCTACTGCTTAGGG-GATAAGA-CT-CACC
*
33840100 AT-TTCCAGCCTGTTT-CCTACTGCTTAGGGGGATAAGGCTCACC
1 ATCTT-CAGCCTGTTTCCCTACTGCTTA-GGGGATAAGACTCACC
* * *
33840143 -TCCTTC-G-AT-TTGCTCCACTACTGCTTAGGAGATAAGATCTGTA--
1 AT-CTTCAGCCTGTT--TCC-CTACTGCTTAGGGGATAAGA-CT-CACC
* * * *
33840186 ATCTTTAACCTGTTTCCCTATTGCTTAGGGGGTTAA-AGCTCACC
1 ATCTTCAGCCTGTTTCCCTACTGCTTA-GGGGATAAGA-CTCACC
* * * * *
33840230 GTCTTC-GACCCG-CTCCACTACTGCTCAGGGAGATAAGATCTGTA--
1 ATCTTCAG-CCTGTTTCC-CTACTGCTTAGGG-GATAAGA-CT-CACC
* * * ** *
33840274 ATCTTCATCCTGTTGCCCTACTGCTTAGGGGGTTAAGGTTCACT
1 ATCTTCAGCCTGTTTCCCTACTGCTTA-GGGGATAAGACTCACC
* * * *
33840318 GTCTTC-GATCTG-CTCCACTACTGCTTAGGGAGATAAGATCTGTA--
1 ATCTTCAG-CCTGTTTCC-CTACTGCTTAGGG-GATAAGA-CT-CACC
* * *
33840362 ATTTTCAGCCTGTTTCCCTACTACTTAGGGGCATAAGGCTCACC
1 ATCTTCAGCCTGTTTCCCTACTGCTTAGGGG-ATAAGACTCACC
*
33840406 GTCTTC
1 ATCTTC
33840412 GATCTGCTCC
Statistics
Matches: 370, Mismatches: 102, Indels: 120
0.62 0.17 0.20
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 9 0.02
43 77 0.21
44 241 0.65
45 33 0.09
46 6 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (43 bp):
ATCTTCAGCCTGTTTCCCTACTGCTTAGGGGATAAGACTCACC
Found at i:33839984 original size:88 final size:88
Alignment explanation
Indices: 33839832--33840489 Score: 892
Period size: 88 Copynumber: 7.5 Consensus size: 88
33839822 GCTTATGATT
* * * *
33839832 TGTAATCTTCAGCCTGTTTCCCTACTGCTTAGGAGGATAAGACTCACCATCTTCGATCTGCTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCA
*
33839897 CTGCTGCTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
** * **
33839920 TGTAATTTTTGGCATGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCCACTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCA
*
33839985 CTATTGCTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* * * * * *
33840008 TATAATTTTTAGCCTGTTTCCCTACTGTTTAGGGGAATAAGGCTCACCGTCTTCAATCTGCTTCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCA
33840073 CTACTGCTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* *
33840096 TGTAATTTCCAGCCTGTTT-CCTACTGCTTAGGGGGATAAGGCTCACC-TCCTTCGATTTGCTCC
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGT-CTTCGATCTGCTCC
33840159 ACTACTGCTTA-GGAGATAAGATC
65 ACTACTGCTTAGGGAGATAAGATC
* * * * * *
33840182 TGTAATCTTT-AACCTGTTTCCCTATTGCTTAGGGGGTTAAAGCTCACCGTCTTCGACCCGCTCC
1 TGTAAT-TTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCC
*
33840246 ACTACTGCTCAGGGAGATAAGATC
65 ACTACTGCTTAGGGAGATAAGATC
* * * * * *
33840270 TGTAATCTTCATCCTGTTGCCCTACTGCTTAGGGGGTTAAGGTTCACTGTCTTCGATCTGCTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCA
33840335 CTACTGCTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* *
33840358 TGTAATTTTCAGCCTGTTTCCCTACTACTTAGGGGCATAAGGCTCACCGTCTTCGATCTGCTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCA
* *
33840423 CTACTACTTAAGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* * * * * *
33840446 TGTAATTTCCAGCCTGTTGCCTTACTGTTTAGGGAGTTAAGGCT
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCT
33840490 AGTGGAGATT
Statistics
Matches: 498, Mismatches: 66, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
86 27 0.05
87 98 0.20
88 373 0.75
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (88 bp):
TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCA
CTACTGCTTAGGGAGATAAGATC
Found at i:33844639 original size:19 final size:19
Alignment explanation
Indices: 33844615--33844660 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
33844605 TGTGAAGTTT
*
33844615 AATGCACATG-ATGCAATG
1 AATGCAAATGCATGCAATG
*
33844633 CAATGCAAATGCATGGAATG
1 -AATGCAAATGCATGCAATG
33844653 AATGCAAA
1 AATGCAAA
33844661 AGAAAGTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (19 bp):
AATGCAAATGCATGCAATG
Found at i:33846632 original size:26 final size:25
Alignment explanation
Indices: 33846603--33846662 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
33846593 AGTACATTTA
33846603 AAATAAATAATT-TGTATAAAAGT-TGG
1 AAATAAATAATTATGTA-AAAA-TCT-G
*
33846629 AAATAGAT-ATTATGTAAAAATCTG
1 AAATAAATAATTATGTAAAAATCTG
33846653 AAATAAATAA
1 AAATAAATAA
33846663 ATAAAATAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 9 0.31
25 9 0.31
26 11 0.38
ACGTcount: A:0.55, C:0.02, G:0.12, T:0.32
Consensus pattern (25 bp):
AAATAAATAATTATGTAAAAATCTG
Found at i:33847503 original size:12 final size:12
Alignment explanation
Indices: 33847486--33847519 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
33847476 TTAGTGGGGT
33847486 GGTTTAGTGGTC
1 GGTTTAGTGGTC
33847498 GGTTTAGTGGTC
1 GGTTTAGTGGTC
33847510 GGTTTAGTGG
1 GGTTTAGTGG
33847520 GGTGTTGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.09, C:0.06, G:0.44, T:0.41
Consensus pattern (12 bp):
GGTTTAGTGGTC
Found at i:33851456 original size:13 final size:14
Alignment explanation
Indices: 33851428--33851472 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
33851418 ATTGGGCCTA
33851428 TAATATTTTATTAT
1 TAATATTTTATTAT
33851442 TAATATTTT-TTAT
1 TAATATTTTATTAT
* *
33851455 TAATCAATTAATTAT
1 TAAT-ATTTTATTAT
33851470 TAA
1 TAA
33851473 GTTTTGAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 8 0.30
14 12 0.44
15 7 0.26
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TAATATTTTATTAT
Found at i:33851892 original size:32 final size:31
Alignment explanation
Indices: 33851856--33851953 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 31
33851846 AAAGCTTTTA
* *
33851856 AATTAGGTATAATATTTTTATAATTATTTAGT
1 AATTAAGTATAATATTTTAATAA-TATTTAGT
*
33851888 AATTAAGTAAAATATTTTAATAAATATATT-G-
1 AATTAAGTATAATATTTTAAT-AATAT-TTAGT
* *
33851919 AA-TAAGTATCAATATTTTGATAAGATTTAGT
1 AATTAAGTAT-AATATTTTAATAATATTTAGT
33851950 AATT
1 AATT
33851954 TATTAAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
29 2 0.04
30 11 0.20
31 14 0.26
32 23 0.43
33 4 0.07
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.46
Consensus pattern (31 bp):
AATTAAGTATAATATTTTAATAATATTTAGT
Found at i:33859114 original size:34 final size:34
Alignment explanation
Indices: 33859071--33859135 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
33859061 CAGTCAAATA
* *
33859071 CAGTCTGGGCCTAAGCCCATTTCAGTTTCAGTAG
1 CAGTCTGGGCCTAAGCCCATTCCAATTTCAGTAG
* *
33859105 CAGTTTGGGCCTTAGCCCATTCCAATTTCAG
1 CAGTCTGGGCCTAAGCCCATTCCAATTTCAG
33859136 CATCAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.31
Consensus pattern (34 bp):
CAGTCTGGGCCTAAGCCCATTCCAATTTCAGTAG
Found at i:33859424 original size:23 final size:21
Alignment explanation
Indices: 33859398--33859445 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 21
33859388 TTAAGCAACC
*
33859398 ATCAGTCATATATGCATACATAT
1 ATCAGTCAT-CATGCATA-ATAT
*
33859421 ATCAGTCATCATGCATAATTT
1 ATCAGTCATCATGCATAATAT
33859442 ATCA
1 ATCA
33859446 TGCATACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 7 0.30
23 9 0.39
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (21 bp):
ATCAGTCATCATGCATAATAT
Found at i:33859834 original size:30 final size:30
Alignment explanation
Indices: 33859772--33859835 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
33859762 ACTCATCAAT
* **
33859772 CACAAGCTCGTGTTAAGGCACACGGGTGAC
1 CACAAGCCCGTGTTAAGGCACACGCCTGAC
33859802 CACAAGCCCGTGTTAAGGCACACTGCCT-AC
1 CACAAGCCCGTGTTAAGGCACAC-GCCTGAC
33859832 CACA
1 CACA
33859836 CGGACGACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.28, C:0.33, G:0.23, T:0.16
Consensus pattern (30 bp):
CACAAGCCCGTGTTAAGGCACACGCCTGAC
Found at i:33864828 original size:16 final size:16
Alignment explanation
Indices: 33864807--33864845 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
33864797 GTATTCAGAG
33864807 ATTTTTTT-TTAATTTT
1 ATTTTTTTATT-ATTTT
*
33864823 ATTTTTTTATTTTTTT
1 ATTTTTTTATTATTTT
33864839 ATTTTTT
1 ATTTTTT
33864846 ATTTTTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (16 bp):
ATTTTTTTATTATTTT
Found at i:33864829 original size:7 final size:8
Alignment explanation
Indices: 33864819--33864851 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
33864809 TTTTTTTTAA
33864819 TTTTATTT
1 TTTTATTT
33864827 TTTTATTT
1 TTTTATTT
33864835 TTTTA-TT
1 TTTTATTT
33864842 TTTTATTT
1 TTTTATTT
33864850 TT
1 TT
33864852 ACAAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:33864846 original size:15 final size:16
Alignment explanation
Indices: 33864819--33864851 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
33864809 TTTTTTTTAA
33864819 TTTTATTTTTTTATTT
1 TTTTATTTTTTTATTT
33864835 TTTTA-TTTTTTATTT
1 TTTTATTTTTTTATTT
33864850 TT
1 TT
33864852 ACAAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTATTTTTTTATTT
Found at i:33865763 original size:21 final size:21
Alignment explanation
Indices: 33865737--33865821 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
33865727 TGATCAGTAT
*
33865737 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
33865758 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
33865779 ACGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
33865801 TACGACACATAAAGTGCCTAA
1 -ACGACACACAAAGTGCCTAA
33865822 TCAGTAAAGC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 34 0.65
22 3 0.06
23 15 0.29
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:33865787 original size:23 final size:22
Alignment explanation
Indices: 33865735--33865809 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
33865725 CCTGATCAGT
** *
33865735 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
33865756 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
33865777 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
33865800 ATACGACACA
1 ATACGACACA
33865810 TAAAGTGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 36 0.78
23 10 0.22
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:33867122 original size:29 final size:28
Alignment explanation
Indices: 33867090--33867144 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
33867080 GCTCGAATGC
33867090 TTTCTGTTCTCTT-TTCTCTATTCTTTTTG
1 TTTCTGTTCT-TTATTCTCT-TTCTTTTTG
* *
33867119 TTTCTTTTCTTTATTCTGTTTCTTTT
1 TTTCTGTTCTTTATTCTCTTTCTTTT
33867145 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.04, C:0.18, G:0.05, T:0.73
Consensus pattern (28 bp):
TTTCTGTTCTTTATTCTCTTTCTTTTTG
Found at i:33867127 original size:22 final size:23
Alignment explanation
Indices: 33867089--33867135 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
33867079 TGCTCGAATG
33867089 CTTTCTGTTCTCTTTTCTCTATT
1 CTTTCTGTTCTCTTTTCTCTATT
* *
33867112 CTTTTTGTT-TCTTTTCTTTATT
1 CTTTCTGTTCTCTTTTCTCTATT
33867134 CT
1 CT
33867136 GTTTCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.70
Consensus pattern (23 bp):
CTTTCTGTTCTCTTTTCTCTATT
Found at i:33867147 original size:14 final size:12
Alignment explanation
Indices: 33867099--33867148 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
33867089 CTTTCTGTTC
*
33867099 TCTTTTCTCTAT
1 TCTTTTCTTTAT
*
33867111 TCTTTT-TGT-T
1 TCTTTTCTTTAT
33867121 TCTTTTCTTTAT
1 TCTTTTCTTTAT
33867133 TCTGTTTCTTTTAT
1 TCT-TTTC-TTTAT
33867147 TC
1 TC
33867149 ACTTTAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 7 0.22
11 4 0.12
12 10 0.31
13 4 0.12
14 7 0.22
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (12 bp):
TCTTTTCTTTAT
Found at i:33892854 original size:14 final size:13
Alignment explanation
Indices: 33892831--33892881 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
33892821 CAAACCAACT
33892831 TTTTTAATTTTTA
1 TTTTTAATTTTTA
*
33892844 CTTTTTCATTTTTA
1 -TTTTTAATTTTTA
33892858 TTTTGCTAATTTTT-
1 TTTT--TAATTTTTA
*
33892872 TTTTAAATTT
1 TTTTTAATTT
33892882 GATGTGTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 5 0.16
13 4 0.12
14 16 0.50
15 7 0.22
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTTTAATTTTTA
Found at i:33893490 original size:14 final size:14
Alignment explanation
Indices: 33893471--33893500 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
33893461 TCAAATCACC
33893471 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
33893485 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
33893499 GG
1 GG
33893501 CCTAAATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.13, G:0.47, T:0.33
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:33900349 original size:14 final size:14
Alignment explanation
Indices: 33900330--33900361 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
33900320 TCCAATCACC
33900330 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
33900344 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
33900358 GGGC
1 GGGC
33900362 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:33900642 original size:18 final size:20
Alignment explanation
Indices: 33900607--33900645 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
33900597 ATATAATTTT
*
33900607 AAAATATATATAATACATCA
1 AAAATATATATAAAACATCA
33900627 AAAATAT-TA-AAAACATCA
1 AAAATATATATAAAACATCA
33900645 A
1 A
33900646 GATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAATATATATAAAACATCA
Found at i:33900766 original size:30 final size:30
Alignment explanation
Indices: 33900731--33900792 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
33900721 CTTAACAAGT
33900731 AAATATCTCTAAAATAATAACAAAATTAAC
1 AAATATCTCTAAAATAATAACAAAATTAAC
*
33900761 AAATATCTTTAAAATAATAACAAAATTAAC
1 AAATATCTCTAAAATAATAACAAAATTAAC
33900791 AA
1 AA
33900793 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (30 bp):
AAATATCTCTAAAATAATAACAAAATTAAC
Found at i:33904020 original size:473 final size:473
Alignment explanation
Indices: 33903135--33904080 Score: 1892
Period size: 473 Copynumber: 2.0 Consensus size: 473
33903125 TTGATGCTCC
33903135 AACACGACCTTCTAAAGAGGCACCGCGAGGTACTTGTCTAATCTGCATTGCTGATTCTTGAAAAC
1 AACACGACCTTCTAAAGAGGCACCGCGAGGTACTTGTCTAATCTGCATTGCTGATTCTTGAAAAC
33903200 TGTTTCAGGTTTTGATTTCATGGATTTCTTTGCAATCTGTTCTGCCTTCTCTGTTACATTAAAAT
66 TGTTTCAGGTTTTGATTTCATGGATTTCTTTGCAATCTGTTCTGCCTTCTCTGTTACATTAAAAT
33903265 TCAAATGTTTTGTTGTTTTTGAATGCAGTATTGCCTGCACTCATGAGACTTTAGGCTGAAATAGT
131 TCAAATGTTTTGTTGTTTTTGAATGCAGTATTGCCTGCACTCATGAGACTTTAGGCTGAAATAGT
33903330 TACAAGTCTCACATGGCTAAAGCTGGTATTTTATTGCATTCATTTCATGGCTTCTAATTCTTTTT
196 TACAAGTCTCACATGGCTAAAGCTGGTATTTTATTGCATTCATTTCATGGCTTCTAATTCTTTTT
33903395 TTTTTAATTTCTACAGTATCTCTTTTGATATCACATTTTTTTTATTGAATGATGCATGGTTAAAG
261 TTTTTAATTTCTACAGTATCTCTTTTGATATCACATTTTTTTTATTGAATGATGCATGGTTAAAG
33903460 TCAGATGTGCGTTTCTAATGACTTTGTTGCGTTAGTAGTGATAGGCAATGCATGCAGGTTTGTGC
326 TCAGATGTGCGTTTCTAATGACTTTGTTGCGTTAGTAGTGATAGGCAATGCATGCAGGTTTGTGC
33903525 CAGTATGATATCTGTCATACGTGTCTTAATACAATCATGAAATGAGTTTCTTTTATGATTTTGAT
391 CAGTATGATATCTGTCATACGTGTCTTAATACAATCATGAAATGAGTTTCTTTTATGATTTTGAT
33903590 CTCTCAAAAACTGTCTTT
456 CTCTCAAAAACTGTCTTT
33903608 AACACGACCTTCTAAAGAGGCACCGCGAGGTACTTGTCTAATCTGCATTGCTGATTCTTGAAAAC
1 AACACGACCTTCTAAAGAGGCACCGCGAGGTACTTGTCTAATCTGCATTGCTGATTCTTGAAAAC
33903673 TGTTTCAGGTTTTGATTTCATGGATTTCTTTGCAATCTGTTCTGCCTTCTCTGTTACATTAAAAT
66 TGTTTCAGGTTTTGATTTCATGGATTTCTTTGCAATCTGTTCTGCCTTCTCTGTTACATTAAAAT
33903738 TCAAATGTTTTGTTGTTTTTGAATGCAGTATTGCCTGCACTCATGAGACTTTAGGCTGAAATAGT
131 TCAAATGTTTTGTTGTTTTTGAATGCAGTATTGCCTGCACTCATGAGACTTTAGGCTGAAATAGT
33903803 TACAAGTCTCACATGGCTAAAGCTGGTATTTTATTGCATTCATTTCATGGCTTCTAATTCTTTTT
196 TACAAGTCTCACATGGCTAAAGCTGGTATTTTATTGCATTCATTTCATGGCTTCTAATTCTTTTT
33903868 TTTTTAATTTCTACAGTATCTCTTTTGATATCACATTTTTTTTATTGAATGATGCATGGTTAAAG
261 TTTTTAATTTCTACAGTATCTCTTTTGATATCACATTTTTTTTATTGAATGATGCATGGTTAAAG
33903933 TCAGATGTGCGTTTCTAATGACTTTGTTGCGTTAGTAGTGATAGGCAATGCATGCAGGTTTGTGC
326 TCAGATGTGCGTTTCTAATGACTTTGTTGCGTTAGTAGTGATAGGCAATGCATGCAGGTTTGTGC
33903998 CAGTATGATATCTGTCATACGTGTCTTAATACAATCATGAAATGAGTTTCTTTTATGATTTTGAT
391 CAGTATGATATCTGTCATACGTGTCTTAATACAATCATGAAATGAGTTTCTTTTATGATTTTGAT
33904063 CTCTCAAAAACTGTCTTT
456 CTCTCAAAAACTGTCTTT
33904081 TAACTGTAGA
Statistics
Matches: 473, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
473 473 1.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (473 bp):
AACACGACCTTCTAAAGAGGCACCGCGAGGTACTTGTCTAATCTGCATTGCTGATTCTTGAAAAC
TGTTTCAGGTTTTGATTTCATGGATTTCTTTGCAATCTGTTCTGCCTTCTCTGTTACATTAAAAT
TCAAATGTTTTGTTGTTTTTGAATGCAGTATTGCCTGCACTCATGAGACTTTAGGCTGAAATAGT
TACAAGTCTCACATGGCTAAAGCTGGTATTTTATTGCATTCATTTCATGGCTTCTAATTCTTTTT
TTTTTAATTTCTACAGTATCTCTTTTGATATCACATTTTTTTTATTGAATGATGCATGGTTAAAG
TCAGATGTGCGTTTCTAATGACTTTGTTGCGTTAGTAGTGATAGGCAATGCATGCAGGTTTGTGC
CAGTATGATATCTGTCATACGTGTCTTAATACAATCATGAAATGAGTTTCTTTTATGATTTTGAT
CTCTCAAAAACTGTCTTT
Found at i:33908847 original size:28 final size:28
Alignment explanation
Indices: 33908811--33908867 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
33908801 TAGTCATATG
33908811 AACCTAATTCATAGGATCACAATCTCAT
1 AACCTAATTCATAGGATCACAATCTCAT
33908839 AACCTAATTCATAGGATCACAATCTCAT
1 AACCTAATTCATAGGATCACAATCTCAT
33908867 A
1 A
33908868 GATTAGGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.25, G:0.07, T:0.28
Consensus pattern (28 bp):
AACCTAATTCATAGGATCACAATCTCAT
Found at i:33908868 original size:16 final size:16
Alignment explanation
Indices: 33908819--33908868 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
33908809 TGAACCTAAT
33908819 TCATAGGATCACAATC
1 TCATAGGATCACAATC
33908835 TCATA--A-C-CTAAT-
1 TCATAGGATCAC-AATC
33908847 TCATAGGATCACAATC
1 TCATAGGATCACAATC
33908863 TCATAG
1 TCATAG
33908869 ATTAGGTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
12 6 0.21
13 4 0.14
14 2 0.07
15 4 0.14
16 12 0.43
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (16 bp):
TCATAGGATCACAATC
Found at i:33911595 original size:17 final size:17
Alignment explanation
Indices: 33911552--33911585 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33911542 TTAATTAATT
*
33911552 AATTAATTTAATTTTCTC
1 AATTAAATT-ATTTTCTC
33911570 AATTAAATTATTTTCT
1 AATTAAATTATTTTCT
33911586 TAATACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTAAATTATTTTCTC
Found at i:33913904 original size:42 final size:42
Alignment explanation
Indices: 33913845--33913932 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
33913835 GACAATGTCC
* *
33913845 TTACATCATTCCGAATGAGTAGAATGTCATCAACATATAAAA
1 TTACATCATTCCCAATGAGTAGAATATCATCAACATATAAAA
33913887 TTACATCATTCCCAATGAGTAGAATATCATCAACATATAAAA
1 TTACATCATTCCCAATGAGTAGAATATCATCAACATATAAAA
33913929 TTAC
1 TTAC
33913933 GAAGATCACC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (42 bp):
TTACATCATTCCCAATGAGTAGAATATCATCAACATATAAAA
Found at i:33916704 original size:16 final size:15
Alignment explanation
Indices: 33916676--33916718 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
33916666 TGTAATTAAT
33916676 ATAAAATAA-TATTA
1 ATAAAATAATTATTA
*
33916690 TTCAAAATAATTATTA
1 AT-AAAATAATTATTA
33916706 ATAAATATAATTA
1 ATAAA-ATAATTA
33916719 AATTATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 1 0.04
15 10 0.42
16 13 0.54
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAAATAATTATTA
Found at i:33917732 original size:35 final size:36
Alignment explanation
Indices: 33917665--33917732 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
33917655 CGGATAAATA
*
33917665 TTTAAATATATATTATAAAAATTTAATGAAATAGTT
1 TTTAAATAGATATTATAAAAATTTAATGAAATAGTT
* *
33917701 TTTAAATAGATTTTAT-AAAATTTAATTAAATA
1 TTTAAATAGATATTATAAAAATTTAATGAAATA
33917733 AAAACAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 15 0.52
36 14 0.48
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (36 bp):
TTTAAATAGATATTATAAAAATTTAATGAAATAGTT
Found at i:33917906 original size:30 final size:30
Alignment explanation
Indices: 33917870--33917929 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
33917860 TTGCTATATT
33917870 GGTATAAATGTAATAAATCTTATAAATAAA
1 GGTATAAATGTAATAAATCTTATAAATAAA
*
33917900 GGTATAAATGTAATAAATTTTATAAATAAA
1 GGTATAAATGTAATAAATCTTATAAATAAA
33917930 AGTCTTGACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.35
Consensus pattern (30 bp):
GGTATAAATGTAATAAATCTTATAAATAAA
Found at i:33917908 original size:21 final size:22
Alignment explanation
Indices: 33917873--33917917 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
33917863 CTATATTGGT
* *
33917873 ATAAATGTAATAAATCTTATAA
1 ATAAAGGTAATAAATCTAATAA
*
33917895 ATAAAGGT-ATAAATGTAATAA
1 ATAAAGGTAATAAATCTAATAA
33917916 AT
1 AT
33917918 TTTATAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (22 bp):
ATAAAGGTAATAAATCTAATAA
Found at i:33918505 original size:61 final size:60
Alignment explanation
Indices: 33918376--33918517 Score: 137
Period size: 60 Copynumber: 2.3 Consensus size: 60
33918366 CATTATGCAC
* * *
33918376 CTAAATTTAACACTTTTTTTCTTAATTTGATACCTAAATTTTTTTTACTCAATTTGGCTT
1 CTAAACTTGACACTTTTTTTCTTAATTCGATACCTAAATTTTTTTTACTCAATTTGGCTT
** * **
33918436 CTGGACTTGACACTTTTTTTC-TAAGTTCG-TACCTAAGCTTTTTTTTTGTCCAATTTGG-TAT
1 CTAAACTTGACACTTTTTTTCTTAA-TTCGATACCTAA-ATTTTTTTTACT-CAATTTGGCT-T
*
33918497 CTAAACTTGGCAACTTTTTTT
1 CTAAACTTGAC-ACTTTTTTT
33918518 TATAATTTGA
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
59 10 0.15
60 30 0.45
61 17 0.26
62 9 0.14
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.51
Consensus pattern (60 bp):
CTAAACTTGACACTTTTTTTCTTAATTCGATACCTAAATTTTTTTTACTCAATTTGGCTT
Found at i:33919004 original size:23 final size:21
Alignment explanation
Indices: 33918975--33919017 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
33918965 AAAATAAAAT
*
33918975 AAATAAATAAAATTGAACATTTA
1 AAATAAA-AAAAATGAA-ATTTA
33918998 AAATAAAAAAAATGAAATTT
1 AAATAAAAAAAATGAAATTT
33919018 CATGTGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 8 0.42
23 7 0.37
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (21 bp):
AAATAAAAAAAATGAAATTTA
Found at i:33923395 original size:43 final size:43
Alignment explanation
Indices: 33923348--33923429 Score: 164
Period size: 43 Copynumber: 1.9 Consensus size: 43
33923338 TAACACATCA
33923348 ATAATATGTTCAAAATTAAATTTATAACCATATACAAGCCTTC
1 ATAATATGTTCAAAATTAAATTTATAACCATATACAAGCCTTC
33923391 ATAATATGTTCAAAATTAAATTTATAACCATATACAAGC
1 ATAATATGTTCAAAATTAAATTTATAACCATATACAAGC
33923430 ATTTCATTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (43 bp):
ATAATATGTTCAAAATTAAATTTATAACCATATACAAGCCTTC
Found at i:33925239 original size:10 final size:11
Alignment explanation
Indices: 33925199--33925245 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
33925189 CCCTTATCAT
*
33925199 CTTTCTCTACA
1 CTTTCTCTTCA
33925210 CTATTTCTCTTCA
1 C--TTTCTCTTCA
33925223 CTTTCTCTT-A
1 CTTTCTCTTCA
*
33925233 TTTTCTCTTCA
1 CTTTCTCTTCA
33925244 CT
1 CT
33925246 AACATATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 9 0.30
11 11 0.37
13 10 0.33
ACGTcount: A:0.13, C:0.32, G:0.00, T:0.55
Consensus pattern (11 bp):
CTTTCTCTTCA
Found at i:33926109 original size:30 final size:30
Alignment explanation
Indices: 33926075--33926134 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
33926065 TTCCTAGTGA
33926075 CATAACTCAATTTTCCTCTTCTTGTCACTT
1 CATAACTCAATTTTCCTCTTCTTGTCACTT
33926105 CATAACTCAATTTTCCTCTTCTTGTCACTT
1 CATAACTCAATTTTCCTCTTCTTGTCACTT
33926135 TATTTCCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.30, G:0.03, T:0.47
Consensus pattern (30 bp):
CATAACTCAATTTTCCTCTTCTTGTCACTT
Found at i:33926412 original size:74 final size:71
Alignment explanation
Indices: 33926330--33926478 Score: 262
Period size: 74 Copynumber: 2.1 Consensus size: 71
33926320 TATCCATTCC
*
33926330 TTATCCTTTCATTTCACAATTTATTTTTAATTCAATATTGCGAATATACCTTATAACGAAAATTG
1 TTATCCTTTCATTTCACAATTTATTTTTAATTCAATATTGCGAACATACCTTATAACGAAAA-T-
33926395 CTTCCCTTT
64 -TTCCCTTT
33926404 TTATCCTTTCATTTCACAATTTATTTTTAATTCAATATTGCGAACATACCTTATAACGAAAATTT
1 TTATCCTTTCATTTCACAATTTATTTTTAATTCAATATTGCGAACATACCTTATAACGAAAATTT
33926469 CCCTTT
66 CCCTTT
33926475 TTAT
1 TTAT
33926479 AAGAGGCACA
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
71 12 0.16
73 1 0.01
74 61 0.82
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.46
Consensus pattern (71 bp):
TTATCCTTTCATTTCACAATTTATTTTTAATTCAATATTGCGAACATACCTTATAACGAAAATTT
CCCTTT
Found at i:33927536 original size:6 final size:6
Alignment explanation
Indices: 33927505--33927548 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
33927495 ATAGTACCAG
* * *
33927505 AACAGT AATCAAT AACAGT AGCAGT AATAGT AACAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
33927549 TTGAACACAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
AACAGT
Found at i:33927540 original size:18 final size:19
Alignment explanation
Indices: 33927505--33927548 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
33927495 ATAGTACCAG
33927505 AACAGTAATCAATAACAGT
1 AACAGTAATCAATAACAGT
* *
33927524 AGCAGTAAT-AGTAACAGT
1 AACAGTAATCAATAACAGT
33927542 AACAGTA
1 AACAGTA
33927549 TTGAACACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (19 bp):
AACAGTAATCAATAACAGT
Found at i:33927622 original size:39 final size:39
Alignment explanation
Indices: 33927534--33927671 Score: 136
Period size: 39 Copynumber: 3.4 Consensus size: 39
33927524 AGCAGTAATA
33927534 GTAACAGTAACAGTATT-GAACACACAAAGTG-CTGAATCTG
1 GTAACAGTAACAGTATTCG-ACACACAAAGTGTC-GAATC-G
*
33927574 AAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCG
1 -----GTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCG
* ** *
33927618 GTAACAGTAACAATATTTTACACAGAAAGTGTCGAATCG
1 GTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCG
*
33927657 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
33927672 GCGATAACAG
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
39 47 0.57
44 1 0.01
45 33 0.40
46 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (39 bp):
GTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCG
Found at i:33927671 original size:45 final size:45
Alignment explanation
Indices: 33927528--33927671 Score: 140
Period size: 45 Copynumber: 3.3 Consensus size: 45
33927518 AACAGTAGCA
* * *
33927528 GTAATAGTAACAGTAACAGTATTGAACACACAAAGTG-CTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAATCG
* * *
33927573 GAAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCG
** *
33927618 GTAACAGTAAC----A-A-TATTTTACACAGAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCG
*
33927657 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
33927672 GCGATAACAG
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
39 33 0.40
40 1 0.01
41 1 0.01
45 47 0.57
46 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCG
Found at i:33927711 original size:57 final size:57
Alignment explanation
Indices: 33927619--33927787 Score: 248
Period size: 57 Copynumber: 3.0 Consensus size: 57
33927609 GTCGAATCGG
** * * *
33927619 TAACAGTAACAATATTTTACACAGAAAGTGTCGAATCGGTAACAGTAGCAGTAGCGA
1 TAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAACAGTAGCGA
* * * * *
33927676 TAACAGTAACAATATTCGACACACAAAATGCCGAATCAGTAACAGTAATAATAGCGG
1 TAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAACAGTAGCGA
33927733 TAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAACAGTAGC
1 TAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAACAGTAGC
33927788 AGTAGCAGTA
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 98 1.00
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (57 bp):
TAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAACAGTAGCGA
Found at i:33927782 original size:6 final size:6
Alignment explanation
Indices: 33927771--33927818 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
33927761 TGCCGAATCG
* * * * *
33927771 GTAACA GTAACA GTAGCA GTAGCA GTAGCA GTAGCA ATAACA GTAACA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA
33927819 ATATTTAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.17
Consensus pattern (6 bp):
GTAACA
Found at i:33927791 original size:75 final size:75
Alignment explanation
Indices: 33927712--33927878 Score: 235
Period size: 75 Copynumber: 2.2 Consensus size: 75
33927702 AATGCCGAAT
* ** * *
33927712 CAGTAACAGTAATAATAGCGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACA
1 CAGTAACAGTAACAATAGCAATAACAGTAACAATATTCAACACACAAAGTGCCGAATCGATAACA
33927777 GTAACAGTAG
66 GTAACAGTAG
* * * * *
33927787 CAGTAGCAGTAGCAGTAGCAATAACAGTAACAATATTTAACACACAAAGTGCCGAATCTATAACA
1 CAGTAACAGTAACAATAGCAATAACAGTAACAATATTCAACACACAAAGTGCCGAATCGATAACA
*
33927852 GTAGCAGTAG
66 GTAACAGTAG
33927862 CAGTAACAGTAACAATA
1 CAGTAACAGTAACAATA
33927879 TTCGACACAC
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (75 bp):
CAGTAACAGTAACAATAGCAATAACAGTAACAATATTCAACACACAAAGTGCCGAATCGATAACA
GTAACAGTAG
Found at i:33927814 original size:18 final size:18
Alignment explanation
Indices: 33927772--33927818 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
33927762 GCCGAATCGG
*
33927772 TAACAGTAACAGTAGCAG
1 TAACAGTAACAGTAGCAA
* *
33927790 TAGCAGTAGCAGTAGCAA
1 TAACAGTAACAGTAGCAA
33927808 TAACAGTAACA
1 TAACAGTAACA
33927819 ATATTTAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (18 bp):
TAACAGTAACAGTAGCAA
Found at i:33927821 original size:132 final size:132
Alignment explanation
Indices: 33927661--33927919 Score: 403
Period size: 132 Copynumber: 2.0 Consensus size: 132
33927651 GAATCGGTAA
* * *
33927661 CAGTAGCAGTAGCGATAACAGTAACAATATTCGACACACAAAATGCCGAATC-AGTAACAGTAAT
1 CAGTAGCAGTAGCAATAACAGTAACAATATTCAACACACAAAATGCCGAATCTA-TAACAGTAAC
*
33927725 AATAGCGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAACAGTAGCAG
65 AATAGCAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAACAGTAGCAG
33927790 TAG
130 TAG
* * *
33927793 CAGTAGCAGTAGCAATAACAGTAACAATATTTAACACACAAAGTGCCGAATCTATAACAGTAGCA
1 CAGTAGCAGTAGCAATAACAGTAACAATATTCAACACACAAAATGCCGAATCTATAACAGTAACA
* * * *
33927858 GTAGCAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTCATAGTAGCAGTAGC
66 ATAGCAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAACAGTAGC
33927920 GGTAATAGTA
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
132 114 0.99
133 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (132 bp):
CAGTAGCAGTAGCAATAACAGTAACAATATTCAACACACAAAATGCCGAATCTATAACAGTAACA
ATAGCAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAACAGTAGCAGT
AG
Found at i:33927930 original size:57 final size:57
Alignment explanation
Indices: 33927793--33927931 Score: 197
Period size: 57 Copynumber: 2.4 Consensus size: 57
33927783 GTAGCAGTAG
* * *
33927793 CAGTAGCAGTAGCAATAACAGTAACAATATTTAACACACAAAGTGCCGAATCTATAA
1 CAGTAGCAGTAGCAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCGATAA
* * *
33927850 CAGTAGCAGTAGCAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTCA
1 CAGTAGCAGTAGCAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCGATAA
* * *
33927907 TAGTAGCAGTAGCGGTAATAGTAAC
1 CAGTAGCAGTAGCAGTAACAGTAAC
33927932 CAGCATATAA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 73 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.20
Consensus pattern (57 bp):
CAGTAGCAGTAGCAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCGATAA
Found at i:33928219 original size:10 final size:10
Alignment explanation
Indices: 33928204--33928230 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
33928194 GCCAACTATA
33928204 TCCGACTCAT
1 TCCGACTCAT
33928214 TCCGACTCAT
1 TCCGACTCAT
33928224 TCCGACT
1 TCCGACT
33928231 AGTTAATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.41, G:0.11, T:0.30
Consensus pattern (10 bp):
TCCGACTCAT
Found at i:33928347 original size:5 final size:5
Alignment explanation
Indices: 33928336--33928376 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
33928326 AATTGATCAT
* * *
33928336 AATTC CATTC CATTC CATTC AATTC AATTC AATTC AATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC A
33928377 TGTTCACTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.34, C:0.27, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTC
Found at i:33931030 original size:2 final size:2
Alignment explanation
Indices: 33931025--33931058 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
33931015 GTGTTTTTTC
33931025 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
33931059 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:33931116 original size:8 final size:8
Alignment explanation
Indices: 33931074--33931098 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33931064 ATATAGACTA
33931074 AATAAAAT
1 AATAAAAT
33931082 AATAAAAT
1 AATAAAAT
33931090 AATAAAAT
1 AATAAAAT
33931098 A
1 A
33931099 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:33933512 original size:43 final size:43
Alignment explanation
Indices: 33933464--33933567 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 43
33933454 TCCCGGATAT
* * *
33933464 GGTCTTACATGTTATCACGCATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCACACATCGATGCCAATGTCCCAGACAG
* * * * * * * *
33933507 GGTCTTATACGAAATCATATATTGATTCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCACACATCGATGCCAATGTCCCAGACAG
33933550 GGTCTTACATGTAATCAC
1 GGTCTTACATGTAATCAC
33933568 CTCTCGATAA
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (43 bp):
GGTCTTACATGTAATCACACATCGATGCCAATGTCCCAGACAG
Found at i:33934606 original size:27 final size:28
Alignment explanation
Indices: 33934549--33934608 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
33934539 CTAAAAACTT
*
33934549 TTTTAAGTTATAAATTATAAATATATTA
1 TTTTAAGTTATAAATTATAAATAAATTA
* *
33934577 TTTT-AGTTATAAATTGT-ATTAAATTA
1 TTTTAAGTTATAAATTATAAATAAATTA
*
33934603 ATTTAA
1 TTTTAA
33934609 AATAATTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 10 0.37
27 13 0.48
28 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (28 bp):
TTTTAAGTTATAAATTATAAATAAATTA
Found at i:33935071 original size:21 final size:21
Alignment explanation
Indices: 33935023--33935071 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
33935013 GATATTTATT
* *
33935023 ATAATTATTAATTAAATTAATA
1 ATAA-TATTAAGTAAATAAATA
33935045 ATAATATTAAGTAAATGAAATA
1 ATAATATTAAGTAAAT-AAATA
33935067 A-AATA
1 ATAATA
33935072 AACAAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
ATAATATTAAGTAAATAAATA
Found at i:33939137 original size:55 final size:56
Alignment explanation
Indices: 33939072--33939186 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
33939062 AGCATGGCTG
* *
33939072 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
33939128 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
33939183 CCAG
1 CCAG
33939187 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:33939149 original size:27 final size:27
Alignment explanation
Indices: 33939097--33939186 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
33939087 GTGACAGAGT
33939097 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
33939126 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
33939153 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
33939181 CACCAG
1 CACCAG
33939187 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:33939339 original size:28 final size:28
Alignment explanation
Indices: 33939292--33939356 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
33939282 AAATTAACCC
*
33939292 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
33939320 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
33939348 TAGGGGTAT
1 TAGGGGTAT
33939357 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:33939619 original size:8 final size:8
Alignment explanation
Indices: 33939603--33939634 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
33939593 CCCAAAATAC
33939603 CGGCTTTT
1 CGGCTTTT
*
33939611 CGGCATTT
1 CGGCTTTT
33939619 CGGCTTTT
1 CGGCTTTT
33939627 CGGCTTTT
1 CGGCTTTT
33939635 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:33946977 original size:55 final size:56
Alignment explanation
Indices: 33946912--33947026 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
33946902 AGCATGGCTG
* *
33946912 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
33946968 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
33947023 CCAG
1 CCAG
33947027 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:33946989 original size:27 final size:27
Alignment explanation
Indices: 33946937--33947026 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
33946927 GTGACAGAGT
33946937 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
33946966 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
33946993 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
33947021 CACCAG
1 CACCAG
33947027 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Done.